Tregwiki:Enhancerprediction

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PreMod: searches in whole genome alignments of hs/mm/rn for conserved matches of transfac-matrices in non-coding regions and predicts 100.000 enhancers on the human genomen, searchable, with nice displays.

cisView has the results of a whole-genome scan for TFBSs with patterns from the literature, Jaspar, Xie et al. They add a whole lot of analyzation, overrepresented distances, flanking genes, GOs of flanking genes. Regions can be narrowed down to conserved distal regions or proximal upstream promoters.

CoMoDis searches mammalian alignments for matches to a given binding site model around a set of flanking sequence for a list of genes.